## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1636830_032.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1636830_032.fcs"
##
## FALSE TRUE
## 387273 71778
## [1] "loading /Volumes/Beta/data/flow/testTcellSubFCS_Results/2016-08-01_PANEL 1_DHS_Group two_F1636830_032.fcsresults.RData"
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636533_004.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636533_004.fcs"
##
## FALSE TRUE
## 945246 61817
## [1] "loading /Volumes/Beta/data/flow/testTcellSubFCS_Results/2016-08-01_PANEL 1_DHS_Group one_F1636533_004.fcsresults.RData"
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636850_009.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636850_009.fcs"
##
## FALSE TRUE
## 651951 141803
## [1] "loading /Volumes/Beta/data/flow/testTcellSubFCS_Results/2016-08-01_PANEL 1_DHS_Group one_F1636850_009.fcsresults.RData"
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1636774_030.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1636774_030.fcs"
##
## FALSE TRUE
## 1457319 137416
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 3.474 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 59.657 s
## Build undirected graph from the weighted links...DONE ~ 13.124 s
## Run louvain clustering on the graph ...DONE ~ 15.489 s
## Return a community class
## -Modularity value: 0.9027242
## -Number of clusters: 43 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636819_011.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636819_011.fcs"
##
## FALSE TRUE
## 825881 16707
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 0.267 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 6.928 s
## Build undirected graph from the weighted links...DONE ~ 1.405 s
## Run louvain clustering on the graph ...DONE ~ 0.975 s
## Return a community class
## -Modularity value: 0.8647375
## -Number of clusters: 25 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636775_013.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636775_013.fcs"
##
## FALSE TRUE
## 747256 129842
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 3.279 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 53.394 s
## Build undirected graph from the weighted links...DONE ~ 11.565 s
## Run louvain clustering on the graph ...DONE ~ 11.37 s
## Return a community class
## -Modularity value: 0.9010742
## -Number of clusters: 42 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631366_002.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631366_002.fcs"
##
## FALSE TRUE
## 190183 19910
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 0.236 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 7.589 s
## Build undirected graph from the weighted links...DONE ~ 1.544 s
## Run louvain clustering on the graph ...DONE ~ 1.004 s
## Return a community class
## -Modularity value: 0.8731042
## -Number of clusters: 26 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636847_014.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636847_014.fcs"
##
## FALSE TRUE
## 471979 45632
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 0.694 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 18.389 s
## Build undirected graph from the weighted links...DONE ~ 3.659 s
## Run louvain clustering on the graph ...DONE ~ 3.23 s
## Return a community class
## -Modularity value: 0.8808189
## -Number of clusters: 29 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631377_003.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631377_003.fcs"
##
## FALSE TRUE
## 923237 98770
## [1] "loading /Volumes/Beta/data/flow/testTcellSubFCS_Results/2016-08-01_PANEL 1_DHS_Group one_F1631377_003.fcsresults.RData"
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1631147_029.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group two_F1631147_029.fcs"
##
## FALSE TRUE
## 427020 135593
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 3.471 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 56.214 s
## Build undirected graph from the weighted links...DONE ~ 12.28 s
## Run louvain clustering on the graph ...DONE ~ 11.225 s
## Return a community class
## -Modularity value: 0.9054053
## -Number of clusters: 38 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631107_010.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631107_010.fcs"
##
## FALSE TRUE
## 2237966 74646
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 1.467 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 32.68 s
## Build undirected graph from the weighted links...DONE ~ 6.356 s
## Run louvain clustering on the graph ...DONE ~ 6.473 s
## Return a community class
## -Modularity value: 0.8942902
## -Number of clusters: 37 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636818_005.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636818_005.fcs"
##
## FALSE TRUE
## 1140606 100887
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 2.286 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 41.062 s
## Build undirected graph from the weighted links...DONE ~ 8.632 s
## Run louvain clustering on the graph ...DONE ~ 7.87 s
## Return a community class
## -Modularity value: 0.8980429
## -Number of clusters: 40 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631332_012.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1631332_012.fcs"
##
## FALSE TRUE
## 407912 97770
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 2.259 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 41.941 s
## Build undirected graph from the weighted links...DONE ~ 8.644 s
## Run louvain clustering on the graph ...DONE ~ 8.122 s
## Return a community class
## -Modularity value: 0.9070073
## -Number of clusters: 38 DONE!
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636851_001.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636851_001.fcs"
##
## FALSE TRUE
## 175192 28587
## [1] "loading /Volumes/Beta/data/flow/testTcellSubFCS_Results/2016-08-01_PANEL 1_DHS_Group one_F1636851_001.fcsresults.RData"
## [1] "/Volumes/Beta/data/flow/wsp//801_Panel 1_DHS.wsp"
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636790_006.fcs"
## windows version of flowJo workspace recognized.
## version X
## [1] "2016-08-01_PANEL 1_DHS_Group one_F1636790_006.fcs"
##
## FALSE TRUE
## 500172 100999
## Running t-SNE...with seed 42 DONE
## Running FlowSOM... Building SOM...
## Meta clustering to 4 clusters...
## DONE!
## Running PhenoGraph... Finding nearest neighbors...DONE ~ 2.283 s
## Compute jaccard coefficient between nearest-neighbor sets...DONE ~ 40.37 s
## Build undirected graph from the weighted links...DONE ~ 8.67 s
## Run louvain clustering on the graph ...DONE ~ 7.096 s
## Return a community class
## -Modularity value: 0.8978346
## -Number of clusters: 36 DONE!